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    Ly6c Ly6-C antigen [ Rattus norvegicus (Norway rat) ]

    Gene ID: 56778, updated on 9-Dec-2024

    Summary

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    Symbol
    Ly6cprovided by RGD
    Full Name
    Ly6-C antigenprovided by RGD
    Primary source
    RGD:621266
    See related
    AllianceGenome:RGD:621266
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable acetylcholine receptor binding activity and acetylcholine receptor inhibitor activity. Predicted to be involved in acetylcholine receptor signaling pathway. Predicted to be located in synapse. Predicted to be active in plasma membrane. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 439.8), Thymus (RPKM 204.4) and 6 other tissues See more
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    Genomic context

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    See Ly6c in Genome Data Viewer
    Location:
    7q34
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (108840263..108844082, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (106959508..106963329, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 Unlocalized Scaffold NW_007906224.1 (20092..23977, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479752 Neighboring gene lymphocyte antigen 6 family member E Neighboring gene lymphocyte antigen 6 complex, locus A like 1 Neighboring gene lymphocyte antigen 6 complex, locus I

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Analysis of three distinct Ly6-A-related cDNA sequences isolated from rat kidney. Friedman S, et al. Immunogenetics, 1990. PMID 2154400
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables acetylcholine receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables acetylcholine receptor inhibitor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in acetylcholine receptor signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in side of membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in synapse IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    Ly6-C antigen; ly6-C antigen
    Names
    lymphocyte antigen 6B-like

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_020103.2 → NP_064488.1  Ly6-C antigen precursor

      See identical proteins and their annotated locations for NP_064488.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/TrEMBL
      A0A0G2K4Z4, Q63318, Q63319, Q78EE7
      Conserved Domains (1) summary
      smart00134
      Location:27 → 111
      LU; Ly-6 antigen / uPA receptor -like domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086025.1 Reference GRCr8

      Range
      108840263..108844082 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039079794.2 → XP_038935722.1  ly6-C antigen isoform X1

      UniProtKB/TrEMBL
      A0A0G2K4Z4, Q63318, Q63319, Q78EE7
      Conserved Domains (1) summary
      smart00134
      Location:27 → 111
      LU; Ly-6 antigen / uPA receptor -like domain
    Nucleotide Protein Strain
    Heading Accession and Version

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